JAL-1807 still testing

[jalviewjs.git] / bin / jalview / analysis / scoremodels / PIDScoreModel.js

diff --git a/bin/jalview/analysis/scoremodels/PIDScoreModel.js b/bin/jalview/analysis/scoremodels/PIDScoreModel.js
index 09c86e5..0266c33 100644 (file)
--- a/bin/jalview/analysis/scoremodels/PIDScoreModel.js
+++ b/bin/jalview/analysis/scoremodels/PIDScoreModel.js
@@ -1,32 +1,32 @@
-Clazz.declarePackage ("jalview.analysis.scoremodels");
-Clazz.load (["jalview.api.analysis.ScoreModelI"], "jalview.analysis.scoremodels.PIDScoreModel", ["jalview.util.Comparison"], function () {
-c$ = Clazz.declareType (jalview.analysis.scoremodels, "PIDScoreModel", null, jalview.api.analysis.ScoreModelI);
-Clazz.overrideMethod (c$, "findDistances", 
-function (seqData) {
-var sequenceString = seqData.getSequenceStrings (jalview.util.Comparison.GapChars.charAt (0));
-var noseqs = sequenceString.length;
-var distance =  Clazz.newFloatArray (noseqs, noseqs, 0);
-for (var i = 0; i < (noseqs - 1); i++) {
-for (var j = i; j < noseqs; j++) {
-if (j == i) {
-distance[i][i] = 0;
-} else {
-distance[i][j] = 100 - jalview.util.Comparison.PID (sequenceString[i], sequenceString[j]);
-distance[j][i] = distance[i][j];
-}}
-}
-return distance;
-}, "jalview.datamodel.AlignmentView");
-Clazz.overrideMethod (c$, "getName", 
-function () {
-return "PID";
-});
-Clazz.overrideMethod (c$, "isDNA", 
-function () {
-return true;
-});
-Clazz.overrideMethod (c$, "isProtein", 
-function () {
-return true;
-});
-});
+Clazz.declarePackage ("jalview.analysis.scoremodels");\r
+Clazz.load (["jalview.api.analysis.ScoreModelI"], "jalview.analysis.scoremodels.PIDScoreModel", ["jalview.util.Comparison"], function () {\r
+c$ = Clazz.declareType (jalview.analysis.scoremodels, "PIDScoreModel", null, jalview.api.analysis.ScoreModelI);\r
+Clazz.overrideMethod (c$, "findDistances", \r
+function (seqData) {\r
+var sequenceString = seqData.getSequenceStrings (jalview.util.Comparison.GapChars.charAt (0));\r
+var noseqs = sequenceString.length;\r
+var distance =  Clazz.newFloatArray (noseqs, noseqs, 0);\r
+for (var i = 0; i < (noseqs - 1); i++) {\r
+for (var j = i; j < noseqs; j++) {\r
+if (j == i) {\r
+distance[i][i] = 0;\r
+} else {\r
+distance[i][j] = 100 - jalview.util.Comparison.PID (sequenceString[i], sequenceString[j]);\r
+distance[j][i] = distance[i][j];\r
+}}\r
+}\r
+return distance;\r
+}, "jalview.datamodel.AlignmentView");\r
+Clazz.overrideMethod (c$, "getName", \r
+function () {\r
+return "PID";\r
+});\r
+Clazz.overrideMethod (c$, "isDNA", \r
+function () {\r
+return true;\r
+});\r
+Clazz.overrideMethod (c$, "isProtein", \r
+function () {\r
+return true;\r
+});\r
+});\r